8K7J
Crystal structure of human lysosomal alpha-galactosidase A in complex with (2R,3R,4S,5R)-2-((dimethylamino)methyl)-5-(hydroxymethyl)pyrrolidine-3,4-diol
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | NSRRC BEAMLINE TPS 05A |
Synchrotron site | NSRRC |
Beamline | TPS 05A |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2022-03-25 |
Detector | RAYONIX MX300HE |
Wavelength(s) | 1.0 |
Spacegroup name | P 32 2 1 |
Unit cell lengths | 90.677, 90.677, 216.331 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 29.680 - 2.010 |
R-factor | 0.1582 |
Rwork | 0.157 |
R-free | 0.19070 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 1r47 |
RMSD bond length | 0.007 |
RMSD bond angle | 0.906 |
Data reduction software | HKL-2000 |
Data scaling software | HKL-2000 |
Phasing software | MOLREP |
Refinement software | PHENIX (1.19.2_4158) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 30.000 | 2.080 |
High resolution limit [Å] | 2.010 | 2.010 |
Rmerge | 0.105 | 0.657 |
Number of reflections | 68290 | 6025 |
<I/σ(I)> | 21.1 | |
Completeness [%] | 98.6 | |
Redundancy | 10.2 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 7.2 | 293 | 100 mM Tris-HCl buffer 7.2, 25% PEG4000 and 200 mM ammonium sulfate |